Dear Mintu, this seems to be quite a particular case. Just a side question before we jump on the octet fitting of the 1:3 model. Do you have any other evidence that your binding partners are binding in 1:3 stoichiometry? Like a biological mechanism for that or any other experimental assay like SEC? You might try to swap the location of the ligand and analyte and do the reverse experiment. Also did you perform NSB control? Kind regards, Nikolay
On Wed, Aug 28, 2024 at 5:37 PM Mintu Chandra <mint...@gmail.com> wrote: > > Dear Perrakis, > Yes, with a 1:3 binding model, I mean stoichiometry with a sequential binding > model. The sensogram profile that I am getting clearly suggests that neither > it is a 1:1 nor 1:2 stoichiometric binding (at least R-square and RSS values > suggest that it might be a 1:3 stoichiometric binding). I can certainly try > KINTEK but am currently not familiar with that software. > > Thanks. > M Chandra > > > On Wed, Aug 28, 2024 at 10:23 AM <a.perra...@nki.nl> wrote: >> >> Dear Chandra, >> >> What exactly do you mean by 1:3 or 1:2 binding mode? Is that stoichiometry? >> Do you need/want to fit a simple binding model with that stoichiometry, a >> sequential model, or a co-operative model? >> >> Graphpad can get you a long way with existing equations when you define the >> exact problem, but I am personally very find of the KINTEK software (you can >> get a student and trial license for it) which can do anything you ever want >> to do with transit and equilibrium kinetics analysis. >> >> A. >> >> >> >> >> On 28 Aug 2024, at 17:16, Mintu Chandra <mint...@gmail.com> wrote: >> >> LET OP: Deze e-mail is afkomstig van buiten de organisatie. Open alleen >> links of bijlagen als je de afzender kent en weet dat de inhoud veilig is. >> >> CAUTION: This email originated from outside of the organization. Do not >> click links or open attachments unless you recognize the sender and know the >> content is safe. >> >> Hello everyone, >> I am trying to fit a BLI sensogram curve into a 1:3 binding model but there >> is limited scope in the software package (limited to 1:2 binding model) and >> therefore not able to fit the curve to get the accurate KD value. I am >> trying graphpad prism but not getting enough information on which particular >> equation I need to use to fit the BLI curve into a 1:3 binding model. >> >> Any help or suggestion from the community in this matter would be highly >> appreciated. >> >> Thank you, >> M Chandra >> >> ________________________________ >> >> To unsubscribe from the CCP4BB list, click the following link: >> https://www.jiscmail.ac.uk/cgi-bin/WA-JISC.exe?SUBED1=CCP4BB&A=1 >> >> > > > -- > > Mintu Chandra, PhD > > Research Assistant Professor > > Department of Biological Sciences & Biochemistry > > Vanderbilt University > > Nashville, TN, USA - 37235 > > Mobile : 615-947-9274 > > Email : mintu.chan...@vanderbilt.edu > > ORCID : https://orcid.org/0000-0003-2382-5024 > > Google Scholar : > https://scholar.google.com.au/citations?user=xYytyGAAAAAJ&hl=en > > Linkedin : https://www.linkedin.com/in/dr-mintu-chandra-584a8b2b/ > > > ________________________________ > > To unsubscribe from the CCP4BB list, click the following link: > https://www.jiscmail.ac.uk/cgi-bin/WA-JISC.exe?SUBED1=CCP4BB&A=1 ######################################################################## To unsubscribe from the CCP4BB list, click the following link: https://www.jiscmail.ac.uk/cgi-bin/WA-JISC.exe?SUBED1=CCP4BB&A=1 This message was issued to members of www.jiscmail.ac.uk/CCP4BB, a mailing list hosted by www.jiscmail.ac.uk, terms & conditions are available at https://www.jiscmail.ac.uk/policyandsecurity/
